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Lyu K, Zhao Y, Zhang M, Tang J, Zhang J, Liu Y, Bian X, Chen X, Chen H, Wang D. Tracking of Protein Adsorption on Poly(l-lactic acid) Film Surfaces: The Role of Molar Mass. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2023; 39:13534-13545. [PMID: 37712535 DOI: 10.1021/acs.langmuir.3c01571] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/16/2023]
Abstract
Poly(l-lactic acid) (PLLA) has been extensively utilized as a biomaterial for various biomedical applications. The first and one of the most critical steps upon contact with biological fluids is the adsorption of proteins on the material's surface. Understanding the behavior of protein adsorption is vital for guiding the synthesis and preparation of PLLA for biomedical purposes. In this study, total internal reflection fluorescence microscopy was employed to investigate the adsorption of human serum albumin (HSA) on PLLA films with different molar masses. We found that molar mass affects HSA adsorption in such a way that it affects only the adsorption rate constants, but not the desorption rate constants. Additionally, we observed that HSA adsorption is spatially heterogeneous and exhibits many strong binding sites regardless of the molar mass of the PLLA films. We found that the free volume of PLLA plays a crucial role in determining its water uptake capacity and surface hydration, consequently impacting the adsorption of HSA.
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Affiliation(s)
- Kaixuan Lyu
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
- School of Applied Chemistry and Engineering, University of Science and Technology of China, Hefei 230026, P. R. China
| | - Yuehua Zhao
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Miaomiao Zhang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Jilin Tang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Jidong Zhang
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Yanlong Liu
- Key Laboratory of Polymer Ecomaterials, Chinese Academy of Sciences, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Xinchao Bian
- Key Laboratory of Polymer Ecomaterials, Chinese Academy of Sciences, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Xuesi Chen
- Key Laboratory of Polymer Ecomaterials, Chinese Academy of Sciences, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Hongbo Chen
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Dapeng Wang
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
- School of Applied Chemistry and Engineering, University of Science and Technology of China, Hefei 230026, P. R. China
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Peddireddy KR, Michieletto D, Aguirre G, Garamella J, Khanal P, Robertson-Anderson RM. DNA Conformation Dictates Strength and Flocculation in DNA-Microtubule Composites. ACS Macro Lett 2021; 10:1540-1548. [PMID: 35549144 PMCID: PMC9239750 DOI: 10.1021/acsmacrolett.1c00638] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Polymer topology has been shown to play a key role in tuning the dynamics of complex fluids and gels. At the same time, polymer composites, ubiquitous in everyday life, have been shown to exhibit emergent desirable mechanical properties not attainable in single-species systems. Yet, how topology impacts the dynamics and structure of polymer composites remains poorly understood. Here, we create composites of rigid rods (microtubules) polymerized within entangled solutions of flexible linear and ring polymers (DNA) of equal length. We couple optical tweezers microrheology with confocal microscopy and scaled particle theory to show that composites with linear DNA exhibit a strongly nonmonotonic dependence of elasticity and stiffness on microtubule concentration due to depletion-driven polymerization and flocculation of microtubules. In contrast, composites containing ring DNA show a much more modest monotonic increase in elastic strength with microtubule concentration, which we demonstrate arises from the decreased conformational size and increased miscibility of rings.
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Affiliation(s)
- Karthik R Peddireddy
- Department of Physics and Biophysics, University of San Diego, 5998 Alcala Park, San Diego, California 92110, United States
| | - Davide Michieletto
- School of Physics and Astronomy, University of Edinburgh, Peter Guthrie Tait Road, Edinburgh, EH9 3FD, United Kingdom
- MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine University of Edinburgh, Edinburgh EH4 2XU, United Kingdom
| | - Gina Aguirre
- Department of Physics and Biophysics, University of San Diego, 5998 Alcala Park, San Diego, California 92110, United States
| | - Jonathan Garamella
- Department of Physics and Biophysics, University of San Diego, 5998 Alcala Park, San Diego, California 92110, United States
| | - Pawan Khanal
- Department of Physics and Biophysics, University of San Diego, 5998 Alcala Park, San Diego, California 92110, United States
| | - Rae M Robertson-Anderson
- Department of Physics and Biophysics, University of San Diego, 5998 Alcala Park, San Diego, California 92110, United States
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Alexiou TS, Alatas PV, Tsalikis DG, Mavrantzas VG. Conformational and Dynamic Properties of Short DNA Minicircles in Aqueous Solution from Atomistic Molecular Dynamics Simulations. Macromolecules 2020. [DOI: 10.1021/acs.macromol.0c00821] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Terpsichori S. Alexiou
- Department of Chemical Engineering, University of Patras & FORTH-ICE/HT, Patras, GR 26504, Greece
| | - Panagiotis V. Alatas
- Department of Chemical Engineering, University of Patras & FORTH-ICE/HT, Patras, GR 26504, Greece
| | - Dimitrios G. Tsalikis
- Department of Chemical Engineering, University of Patras & FORTH-ICE/HT, Patras, GR 26504, Greece
| | - Vlasis G. Mavrantzas
- Department of Chemical Engineering, University of Patras & FORTH-ICE/HT, Patras, GR 26504, Greece
- Department of Mechanical and Process Engineering, Particle Technology Laboratory, ETH Zürich, CH-8092 Zürich, Switzerland
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Katsarou AF, Tsamopoulos AJ, Tsalikis DG, Mavrantzas VG. Dynamic Heterogeneity in Ring-Linear Polymer Blends. Polymers (Basel) 2020; 12:E752. [PMID: 32235530 PMCID: PMC7240694 DOI: 10.3390/polym12040752] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2020] [Revised: 03/15/2020] [Accepted: 03/18/2020] [Indexed: 11/16/2022] Open
Abstract
We present results from a direct statistical analysis of long molecular dynamics (MD) trajectories for the orientational relaxation of individual ring molecules in blends with equivalent linear chains. Our analysis reveals a very broad distribution of ring relaxation times whose width increases with increasing ring/linear molecular length and increasing concentration of the blend in linear chains. Dynamic heterogeneity is also observed in the pure ring melts but to a lesser extent. The enhanced degree of dynamic heterogeneity in the blends arises from the substantial increase in the intrinsic timescales of a large subpopulation of ring molecules due to their involvement in strong threading events with a certain population of the linear chains present in the blend. Our analysis suggests that the relaxation dynamics of the rings are controlled by the different states of their threading by linear chains. Unthreaded or singly-threaded rings exhibit terminal relaxation very similar to that in their own melt, but multiply-threaded rings relax much slower due to the long lifetimes of the corresponding topological interactions. By further analyzing the MD data for ring molecule terminal relaxation in terms of the sum of simple exponential functions we have been able to quantify the characteristic relaxation times of the corresponding mechanisms contributing to ring relaxation both in their pure melts and in the blends, and their relative importance. The extra contribution due to ring-linear threadings in the blends becomes immediately apparent through such an analysis.
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Affiliation(s)
- Anna F. Katsarou
- Department of Chemical Engineering, Imperial College London, South Kensington Campus, London SW7 2AZ, UK;
| | - Alexandros J. Tsamopoulos
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA 91125, USA;
| | - Dimitrios G. Tsalikis
- Department of Chemical Engineering, University of Patras and FORTH-ICE/HT, GR 26504 Patras, Greece
| | - Vlasis G. Mavrantzas
- Department of Chemical Engineering, University of Patras and FORTH-ICE/HT, GR 26504 Patras, Greece
- Particle Technology Laboratory, Department of Mechanical and Process Engineering, ETH Zürich, CH-8092 Zürich, Switzerland
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Serag MF, Aikeremu A, Tsukamoto R, Piwoński H, Abadi M, Kaji N, Dwyer JR, Baba Y, Habuchi S. Geometry-Based Self-Assembly of Histone-DNA Nanostructures at Single-Nucleotide Resolution. ACS NANO 2019; 13:8155-8168. [PMID: 31244030 DOI: 10.1021/acsnano.9b03259] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Histones are basic protein monomers capable of interacting with DNA, providing the mechanism of DNA compaction inside the cell nucleus. The well-ordered assembly process of histone and DNA is a potential candidate as the approach for building DNA-protein nanostructures. Here, utilizing the sequence-independent histone-DNA interaction, we present an approach to self-assemble histones and single-stranded DNA (ssDNA) to form well-defined histone-DNA (sHD) nanoparticles and their multidimensional cross-linked complexes (cHD). By using various molecular biology and microscopy techniques, we elucidate the structure of these complexes, and we show that they are formed at carefully controlled conditions of temperature, ionic strength, concentration, and incubation time. We also demonstrate using a set of ssDNA molecular rulers and a geometric accommodation model that the assembly of sHD and cHD particles proceeds with precise geometry so that the number of ssDNA in these particles can be programmed by the length of ssDNA. We further show that the formation of cHD amplifies the effect of the length of ssDNA on the self-assembly, allowing for distinguishing ssDNA of different lengths at single nucleotide resolution. We envision that our geometry-directed approach of self-assembling histone-DNA nanostructures and the fundamental insights can serve as a structural platform to advance building precisely ordered DNA-protein nanostructures.
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Affiliation(s)
- Maged F Serag
- Biological and Environmental Science and Engineering Division , King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900 , Saudi Arabia
- Department of Biomolecular Engineering, Graduate School of Engineering , Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8603 , Japan
- ImPACT Research Center for Advanced Nanobiodevices , Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8603 , Japan
| | - Aimaiti Aikeremu
- Biological and Environmental Science and Engineering Division , King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900 , Saudi Arabia
| | - Ryoko Tsukamoto
- Department of Biomolecular Engineering, Graduate School of Engineering , Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8603 , Japan
- ImPACT Research Center for Advanced Nanobiodevices , Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8603 , Japan
| | - Hubert Piwoński
- Biological and Environmental Science and Engineering Division , King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900 , Saudi Arabia
| | - Maram Abadi
- Biological and Environmental Science and Engineering Division , King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900 , Saudi Arabia
| | - Noritada Kaji
- Department of Applied Chemistry, Graduate School of Engineering , Kyushu University , 744 Motooka , Nishi-ku, Fukuoka 819-0395 , Japan
- JST, PRESTO , 4-1-8 Honcho , Kawaguchi , Saitama 332-0012 , Japan
| | - Jason R Dwyer
- Department of Chemistry , University of Rhode Island , 140 Flagg Road , Kingston , Rhode Island 02881 , United States
| | - Yoshinobu Baba
- Department of Biomolecular Engineering, Graduate School of Engineering , Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8603 , Japan
- ImPACT Research Center for Advanced Nanobiodevices , Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8603 , Japan
- National Institute of Advanced Industrial Science and Technology (AIST) , Takamatsu 761-0395 , Japan
- School of Pharmacy , Kaohsiung Medical University , Kaohsiung 807 , Taiwan , R.O.C
| | - Satoshi Habuchi
- Biological and Environmental Science and Engineering Division , King Abdullah University of Science and Technology (KAUST) , Thuwal 23955-6900 , Saudi Arabia
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Abadi M, Serag MF, Habuchi S. Entangled polymer dynamics beyond reptation. Nat Commun 2018; 9:5098. [PMID: 30504765 PMCID: PMC6269522 DOI: 10.1038/s41467-018-07546-7] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2018] [Accepted: 11/06/2018] [Indexed: 12/15/2022] Open
Abstract
Macroscopic properties of polymers arise from microscopic entanglement of polymer chains. Entangled polymer dynamics have been described theoretically by time- and space-averaged relaxation modes of single chains occurring at different time and length scales. However, theoretical and experimental studies along this framework provide oversimplified picture of spatiotemporally heterogeneous polymer dynamics. Characterization of entangled polymer dynamics beyond this paradigm requires a method that enables to capture motion and relaxation occurring in real space at different length and time scales. Here we develop new single-molecule characterization platform by combining super-resolution fluorescence imaging and recently developed single-molecule tracking method, cumulative-area tracking, which enables to quantify the chain motion in the length and time scale of nanometres to micrometres and milliseconds to minutes. Using linear and cyclic dsDNA molecules as model systems, our new method reveals chain-position-dependent motion of the entangled linear chains, which is beyond the scope of current theoretical framework.
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Affiliation(s)
- Maram Abadi
- Biological and Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Saudi Arabia
| | - Maged F Serag
- Biological and Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Saudi Arabia
| | - Satoshi Habuchi
- Biological and Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Saudi Arabia.
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Zhou X, Liu L, Chen J, Zhang L. Unusual conformations of semiflexible ring polymers confined in two parallel surfaces. POLYMER 2018. [DOI: 10.1016/j.polymer.2018.10.039] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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9
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Serag MF, Habuchi S. Conserved linear dynamics of single-molecule Brownian motion. Nat Commun 2017; 8:15675. [PMID: 28585925 PMCID: PMC5467176 DOI: 10.1038/ncomms15675] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2016] [Accepted: 04/19/2017] [Indexed: 12/31/2022] Open
Abstract
Macromolecular diffusion in homogeneous fluid at length scales greater than the size of the molecule is regarded as a random process. The mean-squared displacement (MSD) of molecules in this regime increases linearly with time. Here we show that non-random motion of DNA molecules in this regime that is undetectable by the MSD analysis can be quantified by characterizing the molecular motion relative to a latticed frame of reference. Our lattice occupancy analysis reveals unexpected sub-modes of motion of DNA that deviate from expected random motion in the linear, diffusive regime. We demonstrate that a subtle interplay between these sub-modes causes the overall diffusive motion of DNA to appear to conform to the linear regime. Our results show that apparently random motion of macromolecules could be governed by non-random dynamics that are detectable only by their relative motion. Our analytical approach should advance broad understanding of diffusion processes of fundamental relevance.
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Affiliation(s)
- Maged F. Serag
- Biological and Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Saudi Arabia
| | - Satoshi Habuchi
- Biological and Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Saudi Arabia
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Li W, Yao W, Wang J, Qiu Z, Tang J, Yang S, Zhu M, Xu Z, Hu R, Qin A, Tang BZ. Studying a novel AIE coating and its handling process via fluorescence spectrum. RSC Adv 2017. [DOI: 10.1039/c7ra06527b] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Abstract
Study the existing state of TPE–EPOXY-1 polymer chains in good solution varied with its concentration.
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12
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Regan K, Ricketts S, Robertson-Anderson RM. DNA as a Model for Probing Polymer Entanglements: Circular Polymers and Non-Classical Dynamics. Polymers (Basel) 2016; 8:E336. [PMID: 30974610 PMCID: PMC6432451 DOI: 10.3390/polym8090336] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2016] [Revised: 08/25/2016] [Accepted: 08/25/2016] [Indexed: 02/04/2023] Open
Abstract
Double-stranded DNA offers a robust platform for investigating fundamental questions regarding the dynamics of entangled polymer solutions. The exceptional monodispersity and multiple naturally occurring topologies of DNA, as well as a wide range of tunable lengths and concentrations that encompass the entanglement regime, enable direct testing of molecular-level entanglement theories and corresponding scaling laws. DNA is also amenable to a wide range of techniques from passive to nonlinear measurements and from single-molecule to bulk macroscopic experiments. Over the past two decades, researchers have developed methods to directly visualize and manipulate single entangled DNA molecules in steady-state and stressed conditions using fluorescence microscopy, particle tracking and optical tweezers. Developments in microfluidics, microrheology and bulk rheology have also enabled characterization of the viscoelastic response of entangled DNA from molecular levels to macroscopic scales and over timescales that span from linear to nonlinear regimes. Experiments using DNA have uniquely elucidated the debated entanglement properties of circular polymers and blends of linear and circular polymers. Experiments have also revealed important lengthscale and timescale dependent entanglement dynamics not predicted by classical tube models, both validating and refuting new proposed extensions and alternatives to tube theory and motivating further theoretical work to describe the rich dynamics exhibited in entangled polymer systems.
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Affiliation(s)
- Kathryn Regan
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92110, USA.
| | - Shea Ricketts
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92110, USA.
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